RegulonDB

EvgA matrix and aligment

matrix-quality result

Command: 
EvgA.2nt_upstream-noorf-ovlp-2str.17.meme_quality

Figures

Matrix logo

Decreasing cumulative distributions (dCDF)

Decreasing cumulative distributions (dCDF), logarithmic Y axis

ROC curve (logarithmic X axis)

Matrix information

; convert-matrix  -v 1 -from transfac -i EvgA.2nt_upstream-noorf-ovlp-2str.17.meme_quality_logo
; Input files
;	input	EvgA.2nt_upstream-noorf-ovlp-2str.17.meme_quality_matrix.tf
;	prior	EvgA.2nt_upstream-noorf-ovlp-2str.17.meme_quality2nt_upstream-noorf_Escherichia_coli_K_12_substr__MG1655_uid57779-ovlp-1str.freq.gz_inclusive.tab
; Input format        	transfac
; Output files
;	output	EvgA.2nt_upstream-noorf-ovlp-2str.17.meme_quality_matrix_info.txt
; Output format       	tab
; pseudo-weight       	1
; Background model
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.29086
;		c	0.20809
;		g	0.20476
;		t	0.29629
A	0	0	0	0	8	0	6	1	2	0	0	1	8	3	0	5	7
C	0	8	3	0	0	8	0	0	1	2	1	0	0	0	0	2	0
G	0	0	0	0	0	0	0	6	2	0	7	0	0	5	7	0	0
T	8	0	5	8	0	0	2	1	3	6	0	7	0	0	1	1	1
//
a  0.0  0.0  0.0  0.0  0.9  0.0  0.7  0.1  0.3  0.0  0.0  0.1  0.9  0.4  0.0  0.6  0.8
c  0.0  0.9  0.4  0.0  0.0  0.9  0.0  0.0  0.1  0.2  0.1  0.0  0.0  0.0  0.0  0.2  0.0
g  0.0  0.0  0.0  0.0  0.0  0.0  0.0  0.7  0.2  0.0  0.8  0.0  0.0  0.6  0.8  0.0  0.0
t  0.9  0.0  0.6  0.9  0.0  0.0  0.3  0.1  0.4  0.7  0.0  0.8  0.0  0.0  0.1  0.1  0.1
//
a -2.2 -2.2 -2.2 -2.2  1.2 -2.2  0.9 -0.7 -0.1 -2.2 -2.2 -0.7  1.2  0.2 -2.2  0.7  1.0
c -2.2  1.5  0.5 -2.2 -2.2  1.5 -2.2 -2.2 -0.4  0.2 -0.4 -2.2 -2.2 -2.2 -2.2  0.2 -2.2
g -2.2 -2.2 -2.2 -2.2 -2.2 -2.2 -2.2  1.2  0.2 -2.2  1.4 -2.2 -2.2  1.0  1.4 -2.2 -2.2
t  1.1 -2.2  0.7  1.1 -2.2 -2.2 -0.1 -0.7  0.2  0.9 -2.2  1.0 -2.2 -2.2 -0.7 -0.7 -0.7
//
a -0.1 -0.1 -0.1 -0.1  1.1 -0.1  0.6 -0.1 -0.0 -0.1 -0.1 -0.1  1.1  0.1 -0.1  0.4  0.8
c -0.1  1.3  0.2 -0.1 -0.1  1.3 -0.1 -0.1 -0.1  0.0 -0.1 -0.1 -0.1 -0.1 -0.1  0.0 -0.1
g -0.0 -0.0 -0.0 -0.0 -0.0 -0.0 -0.0  0.8  0.0 -0.0  1.1 -0.0 -0.0  0.6  1.1 -0.0 -0.0
t  1.0 -0.1  0.4  1.0 -0.1 -0.1 -0.0 -0.1  0.1  0.6 -0.1  0.8 -0.1 -0.1 -0.1 -0.1 -0.1
//
; Sites	
;
; Matrix parameters
;	Columns                      	17
;	Rows                         	4
;	Alphabet                     	a|c|g|t
;	Prior                        	a:0.29085999082|c:0.208089935287|g:0.204758708047|t:0.296291365846
;	program                      	transfac
;	matrix.nb                    	1
;	accession                    	1
;	AC                           	1
;	id                           	1
;	name                         	1
;	description                  	TCyTACaGkyGTARGmA
;	min.prior                    	0.204759
;	alphabet.size                	4
;	max.bits                     	2
;	total.information            	11.7691
;	information.per.column       	0.692302
;	max.possible.info.per.col    	1.58592
;	consensus.strict             	TCtTACaGttGTAGGaA
;	consensus.strict.rc          	TTCCTACAACTGTAAGA
;	consensus.IUPAC              	TCyTACaGkyGTARGmA
;	consensus.IUPAC.rc           	TKCYTACRMCTGTARGA
;	consensus.regexp             	TC[ct]TACaG[gt][ct]GTA[AG]G[ac]A
;	consensus.regexp.rc          	T[GT]C[CT]TAC[AG][AC]CTGTA[AG]GA
;	residues.content.crude.freq  	a:0.3015|c:0.1838|g:0.1985|t:0.3162
;	G+C.content.crude.freq       	0.382353
;	residues.content.corrected.freq	a:0.3003|c:0.1865|g:0.1992|t:0.3140
;	G+C.content.corrected.freq   	0.385741
;	min(P(S|M))                  	1.03115e-27
;	max(P(S|M))                  	0.00623581
;	proba_range                  	0.00623581
;	Wmin                         	-35.6
;	Wmax                         	17.9
;	Wrange                       	53.5
; logo file:EvgA.2nt_upstream-noorf-ovlp-2str.17.meme_quality_logo_m1.png
; logo file:EvgA.2nt_upstream-noorf-ovlp-2str.17.meme_quality_logo_m1_rc.png
; Host name	compute-1-0.local
; Job started	2015-08-06.164341
; Job done	2015-08-06.164342
; Seconds	0.31
;	user	0.31
;	system	0.04
;	cuser	0.48
;	csystem	0.06
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